HsaINT0036316 @ hg19
Intron Retention
Gene
ENSG00000155962 | CLIC2
Description
chloride intracellular channel 2 [Source:HGNC Symbol;Acc:2063]
Coordinates
chrX:154505500-154508619:-
Coord C1 exon
chrX:154508438-154508619
Coord A exon
chrX:154507354-154508437
Coord C2 exon
chrX:154505500-154507353
Length
1084 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TTTTTTTTGCAAAATTCTAGGTT
3' ss Score
8.22
Exon sequences
Seq C1 exon
ATTTTGAAAAATCTCTGCTCAAAGAATTCAAGCGTCTGGATGACTACTTAAACACCCCACTTCTGGATGAAATTGATCCAGACAGTGCTGAGGAACCCCCAGTTTCCAGAAGACTATTCTTGGATGGGGACCAGCTAACACTGGCTGATTGTAGCTTGTTACCCAAGCTGAACATTATTAAA
Seq A exon
GTAAGTCTTTATAAGGCAGGCTGAATGGGTGGGAGGGGTTTGCCAGTTGCCAGCACAAAGCATAGTGACCTTCCAGTGCGGTATTATTATATTATAGCTTTGTCATTATCATCATCATCATGTGTACTATATACATCTCTTTTCTCTTTAGAGGGAAGATCCATAATGTTCTCTTCTGGGAAGTATTAAAACTTGTTTCTTTTTTTTTCTTTTTTGAGATAGGGTCTTGCTCTGTCACCCAGGTTGGAGTGCAGTGGCATGATCAAGGCTTATTGCAACCCCCACCTCTGAGGCTCAAGCAGTCCTCCCACCCCACTCTTGAGTAGCTGGGACTACAGGTGCGTGCCACCACGCCTGGCTAATTTTTTGTACTTTTTGTAGAGACAGGGTTTCACCATGTTGCACAGGCTGGTCTTGAACTCCTGGGCTCAAGTGATCCGCCTGCCTTGGCCTCCCAAAGTGTTGGGATTACAGGCGTGAGCCACCGTGCCCAGCCAAAACTTGTTTCTTTCTTTCTAAATCAGAAGGTATTTTCCACTGTCTTATTTTGTAATAATATTACCTATTTTACAGAATTGTTAAGAGAATTAAATAAATTAAAGCATTTAAAATGCTTAGAACAGTGCCTAGATCATAATAGGGAATAACCAATTTGGGCTATTAGTATTATGATGAATTAATCATAAATTTAATAAATATTTATTGCATAGACTTACACAGAATTTACTCTTTGAGTCCTATGCCAAACACAGAGAATATGTAAAGAAAGAAGACATAGGACTCTAAATAAACTCTTAGTCTAGTCGTGGTGGATATGTGCTCATTTTCTGTGGTTCCTTCCTCTAAATATAGTCATAATTAAATACAGAATCAATATCAACATGATTGTAAGCATGTAGTTTTGTCAACATTTGTAGACAAAACATCAAAATAGTCCAAGATTCGTGTCTACTTCATAGTTTATTTTATAGTGCTTTTTGTGTCGATAAGATGCCTTTGATAATCTTGACTTCTAAGAAACATTTCTACATAGTAGGCATATTACTGATGCCTTCTTTTTCCTCTTTTTTTTGCAAAATTCTAG
Seq C2 exon
GTTGCTGCCAAGAAATATCGTGACTTTGACATTCCAGCAGAATTCTCAGGAGTCTGGCGTTATCTCCACAATGCCTATGCCCGTGAAGAATTTACCCACACGTGTCCTGAAGACAAAGAAATTGAAAATACTTACGCAAATGTGGCTAAACAGAAGAGTTAGGAGAGCTCTTACAGGAGAAAAGGCTATATTTGTGATCAGATTTTACTTATTGACATATTAGAAAGGTTTTTGCAAATAAGAATATGAAAAATACTGTTTCTTCTATCCAACTCTCTTATGAAAAGGAACTCTGTATTTTCTATTAGCCATAAATAATCTGTCCACTGTATTTTACAGGTCTTCATACTTTTACTTAATTTTCTTTATCTGTATGGCAAACCACTGCAATCCTGAATGACATGGAAAGCATCACAATCTTTTGCCCTTTGCTTGAATTCCTGGAATGCATACATATAAGCTAAACAGATGTCTGCAGTTATAAATGTCATAAGTAGAGGTACAATCTCACCCTGCTCCTTAGAAACATTTCCATATAAATCGCTAAAATAATTTCACATTTTTGTTAGTTTAATATATACATGAGTTTATTTCTGATATAAATAATAAATACAGAGAGTGAGCATATCAGAGAGGCAAATTCTTAAAGAATGATTTTTAAAATCAGCTCTAGGAAGAGCTCAAGATCAATTGGTCATAGAACAGCATTTGACGCCTAGAACTATGACCACCTCATGGTCAGAGATGAGAATGTAGCCTTTGTGACCAGATTATATTATTTTTAAATGAAGAAGCACTCATTAAATAAAACATAATTTTAAAAAACAATATAAGAAACAAAGTCAACTGAATCTTTTATTCATAGAAATGAAAAGGAAAATAAAAACTGTGGCTGACCAAAAGGTCTTCTTGTTGTCCATAAAAGGATAAGGTAAACAGTCCTTAGATAATTACAAAACTTTCTACAAAAGTTAAAATGTTACATTACTATACGTATTCAGATTCACTTGTTAAAGTACTCTTAAATCATTCAAATCTGGAAACAAAAGCTGAACTTAACTCTTGCTCCCTCAAAAGAGAAACACAAGCATAAGTGCAGCTTCAAAAAAGGAAAATATTTTAGGCTTTGGTGGAAGGGTGGAGTTTAGATAAAATTTAAATGAAGTAGCGTTTTAATAGGTTCAAAGAAAAGTAAGGCAATGAGCAAACTCAAAGTACTGTCCTTGAAAACCATAGAGTCAAGATAAATGTATAGTGTATGGTTAGGTGGCAGAGAAATGCAATCATGTTGATAATCTTTGAGATACATCCTGTCATCAGTATATTTCAGAATACATGCAATGCACTAGCAAGTTACAATTGATAGAATACATTTGAAATGTTAAATGAAATAAGCCAGGCACAGAAAGACAAACACCACATGATCTCACTCATATGTGGAATTTTAAAAAGTTGATCTCACTCATATGTGGAATTTTAAAAAGTTGATCTCACACAAGTAGAGGGTAGAATCGTGGTTACCAGGGGCTAGGGAGAGAAAGAAGGCAGAGGCACTGAAAGATGTTGGTCAATGGGTATAAAGTTACACCTAGGAAGAATAAATTTTGGTATTCACCACAGTAGGGTGACTATAGCAAATAATAATGTAGCATGTATTTCAAGATAGCTAGAAAAGCAGGTTTTTAAATGTCACCACAAAGAAATAACAAATGTTTATAGTGGTGGATATGGTAATTACGCCTATTTGATCATTATACTGTGTGTACATGCATTGAAACACCACATTGTATCCCATATATATGTACAATTATGTGCCCATTATACATTTAAAAAATAAATTTTAAAAACCTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000155962-CLIC2:NM_001289:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.079 A=NA C2=0.151
Domain overlap (PFAM):
C1:
PF134101=GST_C_2=FE(41.7=100)
A:
NA
C2:
PF134101=GST_C_2=PD(16.0=42.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCAAAGAATTCAAGCGTCTGG
R:
AGCCTTTTCTCCTGTAAGAGCT
Band lengths:
353-1437
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)